- List of all SMI (and some KSL) Publications
- SMI-2005-1080
- M. J. O'Connor, H. Knublauch, S. W. Tu, B. Grossof, M. Dean, W. E. Grosso, M. A. Musen. Supporting Rule System
Interoperability on the Semantic Web with SWRL. Fourth International Semantic Web Conference (ISWC2005), Galway,
Ireland, 2005.
- SMI-2005-1079
- M. J. O'Connor, H. Knublauch, S. W. Tu, & M. A. Musen. Writing Rules for the Semantic Web Using SWRL and Jess.
8th International Protege Conference, Protege with Rules Workshop, Madrid, Spain, 2005.
- SMI-2005-1072
- M. Crubezy, M. J. O'Connor, D. L. Buckeridge, Z. S. Pincus, & M. A. Musen. Ontology-Centered Syndromic Surveillance for Bioterrorism. IEEE Intelligent Systems,20(5):26-35. 2005.
- SMI-2004-1071
- O. Dameron. JOT: a scripting environment for creating and managing ontologies. 7th International Protégé Conference, Bethesda, MD (USA), 2004.
- SMI-2004-1070
- O. Dameron, N. F. Noy, H. Knublauch, & M. A. Musen. Accessing and manipulating ontologies using web services.. Third International Semantic Web Conference (ISWC2004), Hiroshima, Japan, 2004.
- SMI-2004-1069
- O. Dameron, B. Gibaud, & M. A. Musen. Using semantic dependencies for consistency management of an ontology of brain-cortex anatomy. First International Workshop on Formal Biomedical Knowledge Representation KRMED04, Whistler, Canada, 2004.
- SMI-2005-1068
- O. Dameron. Keeping modular and platform-independent software up-to-date: benefits from the Semantic Web. 8th International Protege conference, Madrid, Spain, 2005.
- SMI-2005-1067
- O. Dameron, D. L. Rubin, & M. A. Musen. Challenges in converting frame-based ontology into OWL: the Foundational Model of Anatomy case-study. AMIA, Washington DC, 2005.
- SMI-2004-1013
- A. L. Rector, N. Drummond, M. Horridge, J. Rogers, H. Knublauch, R. Stevens, H. Wang, & C. Wroe. OWL Pizzas: Practical Experience of Teaching OWL-DL: Common Errors & Common Patterns. 14th International Conference on Knowledge Engineering and Knowledge Management (EKAW), Whittlebury Hall, UK, 2004.
- SMI-2004-1012
- H. Knublauch. Ontology-Driven Software Development in the Context of the Semantic Web: An Example Scenario with Protégé/OWL. International Workshop on the Model-Driven Semantic Web, Monterey, CA, 2004.
- SMI-2004-1011
- H. Knublauch, R. W. Fergerson, N. F. Noy, & M. A. Musen. The Protégé OWL Plugin: An Open Development Environment for Semantic Web Applications. Third International Semantic Web Conference, Hiroshima, Japan, 2004.
- SMI-2004-1007
- H. Knublauch, M. A. Musen, & A. L. Rector. Editing Description Logic Ontologies with the Protégé OWL Plugin. International Workshop on Description Logics (DL2004), Whistler, Canada, 2004.
- SMI-2004-1006
- H. Knublauch, O. Dameron, & M. A. Musen. Weaving the Biomedical Semantic Web with the Protégé OWL Plugin. First International Workshop on Formal Biomedical Knowledge Representation, Whistler, Canada, 2004.
- SMI-2003-0989
- I. Yeh, P. D. Karp, N. F. Noy, & R. B. Altman. Knowledge acquisition, consistency checking and concurrency control for Gene Ontology (GO). Bioinformatics,2(January 22):241-8. 2003.
- SMI-2003-0973
- N. F. Noy & M. A. Musen. The PROMPT Suite: Interactive Tools For Ontology Merging And Mapping. International Journal of Human-Computer Studies,2003.
- SMI-2003-0961
- N. F. Noy & M. A. Musen. Ontology Versioning as an Element of an Ontology-Evolution Framework. IEEE Intelligent Systems,2003.
- SMI-2002-0944
- R. D. Shankar, S. W. Tu, & M. A. Musen. Use of Protégé-2000 to Encode Clinical Guidelines. 2002.
- SMI-2002-0943
- J. Gennari, M. A. Musen, R. W. Fergerson, W. E. Grosso, M. Crubezy, H. Eriksson, N. F. Noy, & S. W. Tu. The Evolution of Protégé: An Environment for Knowledge-Based Systems Development. 2002.
- SMI-2002-0936
- N. F. Noy, M. A. Musen. Evaluating Ontology-Mapping Tools: Requirements and Experience. 2002.
- SMI-2002-0925
- N. F. Noy, M. A. Musen, J. L. Mejino, & C. Rosse. Pushing the Envelope: Challenges in a Frame-Based Representation of Human Anatomy. 2002.
- SMI-2001-0894
- A. T. Schreiber, M. Crubezy, & M. A. Musen. A Case Study in Using Protege-2000 as a Tool for CommonKADS. 12th International Conference on Knowledge Engineering and Knowledge Management (EKAW'2000), Juan-les-Pins, France, 2001.
- SMI-2001-0889
- N. F. Noy & M. A. Musen. Anchor-PROMPT: Using Non-Local Context for Semantic Matching. Workshop on Ontologies and Information Sharing at the Seventeenth International Joint Conference on Artificial Intelligence (IJCAI-2001), Seattle, WA, 2001.
- SMI-2001-0880
- N. F. Noy & D. L. McGuinness. Ontology Development 101: A Guide to Creating Your First Ontology. 2001.
- SMI-2001-0872
- N. F. Noy, M. Sintek, S. Decker, M. Crubezy, R. W. Fergerson, &
M. A. Musen. Creating Semantic Web Contents with Protege-2000. IEEE
Intelligent Systems 16(2):60-71, 2001.
- SMI-2000-0850
- Q. Li, P. Shilane, N. F. Noy, & M. A. Musen. Ontology Acquisition
from On-line Knowledge Sources. AMIA Annual Symposium, Los Angeles,
CA, . 2000.
- SMI-2000-0838
- M. A. Musen, R. W. Fergerson, W. E. Grosso, N. F. Noy, M. Crubezy,
& J. H. Gennari. Component-Based Support for Building Knowledge-Acquisition
Systems. Conference on Intelligent Information Processing (IIP 2000)
of the International Federation for Information Processing World Computer
Congress (WCC 2000), Beijing, . 2000.
- SMI-2000-0831
- N. F. Noy & M. A. Musen. PROMPT: Algorithm and Tool for Automated
Ontology Merging and Alignment. Seventeenth National Conference on Artificial
Intelligence (AAAI-2000), Austin, TX, . 2000.
- SMI-2000-0830
- N. F. Noy, R. W. Fergerson, & M. A. Musen. The knowledge model
of Protege-2000: Combining interoperability and flexibility. 2th International
Conference on Knowledge Engineering and Knowledge Management (EKAW'2000),
Juan-les-Pins, France, . 2000.
- SMI-2000-0825
- N. F. Noy, W. Grosso, & M. A. Musen. Knowledge-Acquisition Interfaces
for Domain Experts: An Empirical Evaluation of Protege-2000. Twelfth
International Conference on Software Engineering and Knowledge Engineering
(SEKE2000), Chicago, IL, . 2000.
- SMI-1999-0809
- H. Eriksson, R. W. Fergerson, Y. Shahar, & M. A. Musen. Automatic
Generation of Ontology Editors. Twelfth Banff Knowledge Acquisition
for Knowledge-based systems Workshop, Banff, Alberta, Canada, . 1999.
- SMI-1999-0808
- Y. Shahar & M. Musen. Evaluation of a Temporal-Abstraction Knowledge-Acquisition
Tool. Twelfth Banff Knowledge Acquisition for Knowledge-Based Systems
Workshop, Banff, Alberta, Canada, . 1999.
- SMI-1999-0801
- W. E. Grosso, H. Eriksson, R. W. Fergerson, J. H. Gennari, S. W. Tu,
& M. A. Musen. Knowledge Modeling at the Millennium (The Design
and Evolution of Protege-2000). 1999.
- SMI-1999-0799
- N. F. Noy & M. A. Musen. An Algorithm for Merging and Aligning
Ontologies: Automation and Tool Support. Sixteenth National Conference
on Artificial Intelligence (AAAI-99), Workshop on Ontology Management,
Orlando, FL, . 1999.
- SMI-1999-0789
- S. W. Tu & M. A. Musen. A Flexible Approach to Guideline Modeling.
1999.
- SMI-1999-0779
- D. L. Rubin, J. H. Gennari, S. Srinivas, A. Yuen, H. Kaizer, M. A.
Musen, & J. S. Silva. Tool Support for Authoring Eligibility Criteria
for Cancer Trials. 1999.
- SMI-98-0756
- J. Y. Park & M. A. Musen. VM-in-Protege: A Study of Software Reuse.
In A.T. McCray B. Cesnik and J.-R. Scherrer, Ed., Medinfo '98: Ninth
World Congress on Medical Informatics, Seoul, South Korea, 644-648.
IOS Press, 1998.
- SMI-98-0734
- M. A. Musen. Modern Architectures for Intelligent Systems: Reusable
Ontologies and Problem-Solving Methods. In C.G. Chute, Ed., 1998 AMIA
Annual Symposium, Orlando, FL, 46-52. 1998.
- SMI-98-0733
- S. Smith, J. Y. Park, & M. A. Musen. Therapy Planning as Constraint
Satisfaction: A Computer-Based Antiretroviral Therapy Advisor for the
Management of HIV. In C.G. Chute, Ed., 1998 AMIA Annual Symposium, Orlando,
FL, 627-631. 1998.
- SMI-97-0697
- J. Y. Park, J. H. Gennari, & M. A. Musen. Mappings for Reuse in
Knowledge-based Systems. 1997.
- SMI-97-0696
- W. Grosso, J. Gennari, R. Fergerson, & M. Musen. When Knowledge
Models Collide (How it Happens and What to Do). 1997.
- SMI-97-0695
- J. H. Gennari, W. Grosso, & M. Musen. A Method-Description Language:
An initial ontology with examples. 1997.
- SMI-97-0687
- J. H. Gennari, H. Cheng, R. B. Altman, & M. A. Musen. Reuse, CORBA,
and Knowledge-Based Systems. International Journal of Human-Computer
Studies 49(4):523-546, 1998.
- SMI-97-0681
- A. Advani, S. Tu, & M. Musen. Domain Modeling for Integrated Ontologies:
Principles for Reconciliation and Reuse. 1997.
- SMI-97-0657
- M. A. Musen. Domain Ontologies in Software Engineering: Use of Protege
with the EON Architecture. Methods of Information in Medicine 37:540-550,
1998.
- SMI-96-0648
- R. Studer, H. Eriksson, J. Gennari, S. Tu, D. Fensel, & M. Musen.
Ontologies and the Configuration of Problem-solving Methods. In B.R.
Gains and M.A. Musen, Ed., 10th Banff Knowledge Acquisition for Knowledge-Based
Systems Workshop, Banff, Canada, 11-1 - 11-20. 1996.
- SMI-96-0631
- M. Molina, Y. Shahar, J. Cuena, & M. Musen. A Structure of Problem-solving
Methods for Real-time Decision Support: Modeling Approaches Using PROTEGE-II
and KSM. In B.R. Gains and M.A. Musen, Ed., 10th Banff Knowledge Acquisition
for Knowledge-Based Systems Workshop, Banff, Canada, 8-1 - 8-20. 1996.
- SMI-96-0629
- J. H. Gennari, A. R. Stein, & M. A. Musen. Reuse for Knowledge-Based
Systems and CORBA Components. In B.R. Gains and M.A. Musen, Ed., 10th
Banff Knowledge Acquisition for Knowledge-Based Systems Workshop, Banff,
Canada, 46-1 - 46-16. 1996.
- SMI-96-0620
- P. D. Johnson & M. A. Musen. Development of a guideline authoring
tool with PROTEGE-II, based on the DILEMMA Generic Protocol and Guideline
Model. 1996.
- SMI-96-0606
- M. Musen, S. Tu, A. Das, & Y. Shahar. EON: A Component-Based Approach
to Automation of Protocol-Directed Therapy. JAMIA 3:367-388,
1996.
- SMI-96-0602
- D. Fensel, H. Eriksson, M. A. Musen, & R. Studer. Conceptual and
Formal Specifications of Problem-Solving Methods. International Journal
of Expert Systems 9(4):507-532, 1996.
- SMI-95-0574
- M. A. Musen, J. H. Gennari, & W. W. Wong. A Rational Reconstruction
of INTERNIST-I using PROTEGE-II. Nineteenth Annual Symposium on Computer
Applications in Medical Care, New Orleans, LA, 289-293. 1995.
- SMI-94-0551
- H. Eriksson, A. R. Puerta, J. H. Gennari, T. E. Rothenfluh, S. W.
Tu, & M. A. Musen. Custom-Tailored Development Tools for Knowledge-Based
Systems. Knowledge Systems Laboratory, Medical Computer Science, January
1994.
- SMI-94-0549
- J. H. Gennari, R. B. Altman, & M. A. Musen. Reuse with Protege-II:
From Elevators to Ribosomes. ACM-SigSoft 1995 Symposium on Software
Reusability, Seattle, WA, 72-80. 1995.
- SMI-94-0545
- M. A. Musen, J. H. Gennari, H. Eriksson, S. W. Tu, & A. R. Puerta.
PROTEGE II: Computer Support For Development Of Intelligent Systems
From Libraries Of Components. MEDINFO 95, The Eighth World Congress
on Medical Informatics, Vancouver, B.C., Canada, 766-770. 1995.
- SMI-94-0527
- Y. Shahar, A. K. Das, S. W. Tu, F. B. Kraemer, & M. A. Musen.
Knowledge-Based Temporal Abstraction for Diabetic Monitoring. Eighteenth
Annual Symposium on Computer Applications in Medical Care, Washington,
DC, 697-701. 1994.
- SMI-94-0520
- S. W. Tu, H. Eriksson, J. Gennari, Y. Shahar, & M. A. Musen. Ontology-Based
Configuration of Problem-Solving Methods and Generation of Knowledge-Acquisition
Tools: Application of PROTEGE-II to Protocol-Based Decision Support.
Artificial Intelligence in Medicine, 7(Issue):257-289, 1995.
- SMI-94-0512
- Y. Shahar, A. K. Das, S. W. Tu, & M. A. Musen. Knowledge-Based
Temporal Abstraction in Clinical-Management Tasks. AAAI Spring Symposium
on Artificial Intelligence in Medicine, Stanford, CA, 143-147. 1994.
- SMI-94-0496
- H. Eriksson, A. R. Puerta, & M. A. Musen. Generation of Knowledge-Acquisition
Tools from Domain Ontologies. International Journal of Human-Computer
Studies 41:425-453, 1994.
- SMI-93-0502
- T. E. Rothenfluh, J. H. Gennari, H. Eriksson, A. R. Puerta, S. W.
Tu, & M. A. Musen. Reusable Ontologies, Knowledge-Acquisition Tools,
and Performance Systems: PROTEGE-II Solutions to Sisyphus-2. 8th Banff
Knowledge Acquisition for Knowledge-Based Workshop, Banff, Alberta,
43-1 to 43-30. 1994.
- SMI-93-0501
- A. R. Puerta, R. Neches, H. Eriksson, P. Szekely, P. Luo, & M.
A. Musen. Toward Ontology-Based Frameworks for Knowledge-Acquisition
Tools. Eighth Banff Knowledge-Based Systems Workshop, Banff, Alberta,
Canada, 26-1 to 26-14. 1994.
- SMI-93-0497
- J. H. Gennari, S. W. Tu, T. E. Rothenfluh, & M. A. Musen. Mapping
Domains to Methods in Support of Reuse. International Journal of
Human-Computer Studies 41:399-424, 1994.
- SMI-93-0491
- M. A. Musen, S. W. Tu, H. Eriksson, J. H. Gennari, & A. R. Puerta.
PROTEGE-II: An Environment for Reusable Problem-Solving Methods and
Domain Ontologies. International Joint Conference on Artificial Intelligence,
Chambery, Savoie, France, . 1993.
- SMI-93-0478
- H. Eriksson & M. A. Musen. Metatools for knowledge acquisition.
IEEE Software, (Issue):23-29, 1993.
- SMI-93-0468
- J. W. Egar & M. A. Musen. Automated Modeling of Medical Decisions.
Seventeenth Annual Symposium on Computer Applications in Medical Care,
Washington, DC, 424-428. 1993.
- SMI-92-0454
- A. R. Puerta, H. Eriksson, J. W. Egar, & M. A. Musen. Generation
of Knowledge-Acquisition Tools from Reusable Domain Ontologies. November
1992.
- SMI-92-0441
- H. Eriksson, A. R. Puerta, & M. A. Musen. User-Interface Design
Based on Data Models for Application Programs. September 1992.
- SMI-92-0437
- E. Walther, H. Eriksson, & M. A. Musen. Plug-and-Play: Construction
of Task-Specific Expert-System Shells Using Sharable Context Ontologies.
AAAI Workshop on Knowledge Representation Aspects of Knowledge Acquisition,
San Jose, CA, 191-198. AAAI, 1992.
- SMI-92-0434
- H. Eriksson, Y. Shahar, S. W. Tu, A. R. Puerta, & M. A. Musen.
Task Modeling with Reusable Problem-Solving Methods. Artificial Inteligence
79(2):293-326, 1995.
- SMI-92-0428
- A. R. Puerta, S. W. Tu, & M. A. Musen. In K.M. Ford & J.M.
Bradshaw, Ed., Knowledge Acquisition as a Modeling Activity. 129-152.John
Wiley, New York, 1993.
- SMI-92-0427
- H. Eriksson & M. A. Musen. Conceptual Models for Automatic Generation
of Knowledge-Acquisition Tools. Knowledge Engineering Review, 8(Issue):27-47,
1993.
- SMI-91-0398
- M. A. Musen. Dimensions of Knowledge Sharing and Reuse. Computers
and Biomedical Research, 25(Issue):435-467, 1992.
- SMI-91-0367
- A. Puerta, J. Egar, S. Tu, & M. Musen. A Multiple-Method Knowledge-Acquisition
Shell for the Automatic Generation of Knowledge-Acquisition Tools. Sixth
Workshop on Knowledge Acquisition for Knowledge-Based Systems, Banff,
Alberta, 20-1 to 20-19. 1992.
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